A simple sequence-based filtering method for the removal of contaminants in low-biomass 16S rRNA amplicon sequencing approaches.
Contaminants
Low-biomass
Microbiome
Sequence-based filtering
Journal
Journal of microbiological methods
ISSN: 1872-8359
Titre abrégé: J Microbiol Methods
Pays: Netherlands
ID NLM: 8306883
Informations de publication
Date de publication:
16 Sep 2020
16 Sep 2020
Historique:
received:
07
08
2020
revised:
13
09
2020
accepted:
13
09
2020
pubmed:
20
9
2020
medline:
20
9
2020
entrez:
19
9
2020
Statut:
aheadofprint
Résumé
Controlling for contaminant sequences in microbiome experiments involving low-biomass samples is a highly challenging task which still lacks of standardized protocols. Here we propose a simple sequence-based filtering method for 16S rRNA gene microbial profiling approaches, and validate its efficiency using mock community dilution series and environmental samples collected in a clinical setting.
Identifiants
pubmed: 32949682
pii: S0167-7012(20)30776-4
doi: 10.1016/j.mimet.2020.106060
pii:
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
106060Informations de copyright
Copyright © 2020 Elsevier B.V. All rights reserved.
Déclaration de conflit d'intérêts
Declaration of Competing Interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper.